data_17217 ####################### # Entry information # ####################### save_entry_information _Saveframe_category entry_information _Entry_title ; Solution Structure of the C-terminal Dimerization Domain of SARS Coronavirus Nucleocapsid Protein Solved by the SAIL-NMR Method ; _BMRB_accession_number 17217 _BMRB_flat_file_name bmr17217.str _Entry_type original _Submission_date 2010-09-29 _Accession_date 2010-09-29 _Entry_origination author _NMR_STAR_version 2.1.1 _Experimental_method NMR _Details . loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Takeda Mitsuhiro . . 2 Chang Chung-ke . . 3 Ikeya Teppei . . 4 Guntert Peter . . 5 Chang Yuan-hsiang . . 6 Hsu Yen-Ian . . 7 Huang Tai-huang . . 8 Kainosho Masatsune . . stop_ loop_ _Saveframe_category_type _Saveframe_category_type_count binding_constants 1 stop_ loop_ _Revision_date _Revision_keyword _Revision_author _Revision_detail 2010-11-10 original author . stop_ _Original_release_date 2010-11-10 save_ ############################# # Citation for this entry # ############################# save_entry_citation _Saveframe_category entry_citation _Citation_full . _Citation_title 'Solution Structure of the C-terminal Dimerization Domain of SARS Coronavirus Nucleocapsid Protein Solved by the SAIL-NMR Method' _Citation_status published _Citation_type journal _CAS_abstract_code . _MEDLINE_UI_code . _PubMed_ID 18561946 loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Takeda Mitsuhiro . . 2 Chang Chung-ke . . 3 Ikeya Teppei . . 4 Guntert Peter . . 5 Chang Yuan-hsiang . . 6 Hsu Yen-Ian . . 7 Huang Tai-huang . . 8 Kainosho Masatsune . . stop_ _Journal_abbreviation 'J. Mol. Biol.' _Journal_name_full 'Journal of Molecular Biology' _Journal_volume 380 _Journal_issue 4 _Journal_CSD . _Book_chapter_title . _Book_volume . _Book_series . _Book_ISBN . _Conference_state_province . _Conference_abstract_number . _Page_first 608 _Page_last 622 _Year 2008 _Details . save_ ################################## # Molecular system description # ################################## save_assembly _Saveframe_category molecular_system _Mol_system_name 'SARS/dT10 complex' _Enzyme_commission_number . loop_ _Mol_system_component_name _Mol_label SARS $SARS dT10 $dT10 stop_ _System_molecular_weight . _System_physical_state native _System_oligomer_state ? _System_paramagnetic no _System_thiol_state . _Database_query_date . _Details . save_ ######################## # Monomeric polymers # ######################## save_SARS _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class protein _Name_common SARS _Molecular_mass . _Mol_thiol_state 'not reported' _Details . ############################## # Polymer residue sequence # ############################## _Residue_count 128 _Mol_residue_sequence ; MHHHHHHAMGTKKSAAEASK KPRQKRTATKQYNVTQAFGR RGPEQTQGNFGDQDLIRQGT DYKHWPQIAQFAPSASAFFG MSRIGMEVTPSGTWLTYHGA IKLDDKDPQFKDNVILLNKH IDAYKTFP ; loop_ _Residue_seq_code _Residue_label 1 MET 2 HIS 3 HIS 4 HIS 5 HIS 6 HIS 7 HIS 8 ALA 9 MET 10 GLY 11 THR 12 LYS 13 LYS 14 SER 15 ALA 16 ALA 17 GLU 18 ALA 19 SER 20 LYS 21 LYS 22 PRO 23 ARG 24 GLN 25 LYS 26 ARG 27 THR 28 ALA 29 THR 30 LYS 31 GLN 32 TYR 33 ASN 34 VAL 35 THR 36 GLN 37 ALA 38 PHE 39 GLY 40 ARG 41 ARG 42 GLY 43 PRO 44 GLU 45 GLN 46 THR 47 GLN 48 GLY 49 ASN 50 PHE 51 GLY 52 ASP 53 GLN 54 ASP 55 LEU 56 ILE 57 ARG 58 GLN 59 GLY 60 THR 61 ASP 62 TYR 63 LYS 64 HIS 65 TRP 66 PRO 67 GLN 68 ILE 69 ALA 70 GLN 71 PHE 72 ALA 73 PRO 74 SER 75 ALA 76 SER 77 ALA 78 PHE 79 PHE 80 GLY 81 MET 82 SER 83 ARG 84 ILE 85 GLY 86 MET 87 GLU 88 VAL 89 THR 90 PRO 91 SER 92 GLY 93 THR 94 TRP 95 LEU 96 THR 97 TYR 98 HIS 99 GLY 100 ALA 101 ILE 102 LYS 103 LEU 104 ASP 105 ASP 106 LYS 107 ASP 108 PRO 109 GLN 110 PHE 111 LYS 112 ASP 113 ASN 114 VAL 115 ILE 116 LEU 117 LEU 118 ASN 119 LYS 120 HIS 121 ILE 122 ASP 123 ALA 124 TYR 125 LYS 126 THR 127 PHE 128 PRO stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date 2015-07-08 loop_ _Database_name _Database_accession_code _Database_entry_mol_name _Sequence_query_to_submitted_percentage _Sequence_subject_length _Sequence_identity _Sequence_positive _Sequence_homology_expectation_value BMRB 15511 SARS_coronavirus_nucleocapsid_protein_residues_248-365 100.00 128 100.00 100.00 7.40e-90 PDB 2CJR "Crystal Structure Of Oligomerization Domain Of Sars Coronavirus Nucleocapsid Protein." 100.00 128 100.00 100.00 7.40e-90 PDB 2GIB "Crystal Structure Of The Sars Coronavirus Nucleocapsid Protein Dimerization Domain" 75.00 103 100.00 100.00 4.53e-65 PDB 2JW8 "Solution Structure Of Stereo-Array Isotope Labelled (Sail) C-Terminal Dimerization Domain Of Sars Coronavirus Nucleocapsid Prot" 100.00 128 100.00 100.00 7.40e-90 DBJ BAC81358 "nucleocapsid protein N [SARS coronavirus TWH]" 92.19 422 100.00 100.00 7.62e-79 DBJ BAC81372 "nucleocapsid protein N [SARS coronavirus TWJ]" 92.19 422 100.00 100.00 7.62e-79 DBJ BAC81386 "nucleocapsid protein N [SARS coronavirus TWK]" 92.19 422 100.00 100.00 7.62e-79 DBJ BAC81400 "nucleocapsid protein N [SARS coronavirus TWS]" 92.19 422 100.00 100.00 7.62e-79 DBJ BAC81414 "nucleocapsid protein N [SARS coronavirus TWY]" 92.19 422 100.00 100.00 7.62e-79 GB AAP13445 "N protein [SARS coronavirus Urbani]" 92.19 422 100.00 100.00 7.62e-79 GB AAP13814 "putative nucleocapsid protein [SARS coronavirus CUHK-W1]" 92.19 422 100.00 100.00 7.62e-79 GB AAP30037 "nucleocapsid protein N [SARS coronavirus BJ01]" 92.19 422 100.00 100.00 7.62e-79 GB AAP30714 "putative nucleocapsid protein [SARS coronavirus CUHK-Su10]" 92.19 422 100.00 100.00 7.37e-79 GB AAP33707 "nucleocapsid protein N [SARS coronavirus Frankfurt 1]" 92.19 422 100.00 100.00 7.62e-79 REF NP_828858 "nucleocapsid protein [SARS coronavirus]" 92.19 422 100.00 100.00 7.62e-79 SP P59595 "RecName: Full=Nucleoprotein; AltName: Full=Nucleocapsid protein; Short=NC; Short=Protein N" 92.19 422 100.00 100.00 7.62e-79 SP Q3I5I7 "RecName: Full=Nucleoprotein; AltName: Full=Nucleocapsid protein; Short=NC; Short=Protein N" 92.19 421 98.31 99.15 2.16e-77 SP Q3LZX4 "RecName: Full=Nucleoprotein; AltName: Full=Nucleocapsid protein; Short=NC; Short=Protein N" 92.19 421 98.31 99.15 3.08e-77 stop_ save_ save_dT10 _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class DNA _Name_common dT10 _Molecular_mass . _Mol_thiol_state 'not present' _Details . _Residue_count 10 _Mol_residue_sequence XXXXXXXXXX loop_ _Residue_seq_code _Residue_label 1 5AT 2 5AT 3 5AT 4 5AT 5 5AT 6 5AT 7 5AT 8 5AT 9 5AT 10 5AT stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date . save_ ###################### # Polymer residues # ###################### save_chem_comp_5AT _Saveframe_category polymer_residue _Mol_type 'DNA linking' _Name_common 5'-AMINO-5'-DEOXYTHYMIDINE _BMRB_code . _PDB_code 5AT _Standard_residue_derivative . _Molecular_mass 241.244 _Mol_paramagnetic no _Details ; Information obtained from PDB's Chemical Component Dictionary at http://wwpdb-remediation.rutgers.edu/downloads.html Downloaded on Tue Jun 9 12:29:40 2009 ; loop_ _Atom_name _PDB_atom_name _Atom_type _Atom_chirality _Atom_charge _Atom_oxidation_number _Atom_unpaired_electrons C1' C1' C . 0 . ? C2 C2 C . 0 . ? C2' C2' C . 0 . ? C3' C3' C . 0 . ? C4 C4 C . 0 . ? C4' C4' C . 0 . ? C5 C5 C . 0 . ? C5' C5' C . 0 . ? C6 C6 C . 0 . ? C7 C7 C . 0 . ? H1' H1' H . 0 . ? H2' H2' H . 0 . ? H2'' H2'' H . 0 . ? H3 H3 H . 0 . ? H3' H3' H . 0 . ? H4' H4' H . 0 . ? H5' H5' H . 0 . ? H5'' H5'' H . 0 . ? H6 H6 H . 0 . ? H71 H71 H . 0 . ? H72 H72 H . 0 . ? H73 H73 H . 0 . ? HN51 HN51 H . 0 . ? HN52 HN52 H . 0 . ? HO3' HO3' H . 0 . ? N1 N1 N . 0 . ? N3 N3 N . 0 . ? N5' N5' N . 0 . ? O2 O2 O . 0 . ? O3' O3' O . 0 . ? O4 O4 O . 0 . ? O4' O4' O . 0 . ? stop_ loop_ _Bond_order _Bond_atom_one_atom_name _Bond_atom_two_atom_name _PDB_bond_atom_one_atom_name _PDB_bond_atom_two_atom_name SING N5' C5' ? ? SING N5' HN51 ? ? SING N5' HN52 ? ? SING N1 C6 ? ? SING N1 C2 ? ? SING N1 C1' ? ? DOUB C6 C5 ? ? SING C6 H6 ? ? DOUB C2 O2 ? ? SING C2 N3 ? ? SING N3 C4 ? ? SING N3 H3 ? ? DOUB C4 O4 ? ? SING C4 C5 ? ? SING C5 C7 ? ? SING C7 H71 ? ? SING C7 H72 ? ? SING C7 H73 ? ? SING C2' C1' ? ? SING C2' C3' ? ? SING C2' H2' ? ? SING C2' H2'' ? ? SING C5' C4' ? ? SING C5' H5' ? ? SING C5' H5'' ? ? SING C4' O4' ? ? SING C4' C3' ? ? SING C4' H4' ? ? SING O4' C1' ? ? SING C1' H1' ? ? SING C3' O3' ? ? SING C3' H3' ? ? SING O3' HO3' ? ? stop_ save_ #################### # Natural source # #################### save_natural_source _Saveframe_category natural_source loop_ _Mol_label _Organism_name_common _ICTVdb_decimal_code _NCBI_taxonomy_ID _Superkingdom _Kingdom _Genus _Species _Strain $SARS 'SARS coronavirus' 03.019.0.01.014. 227859 virus . Betacoronavirus 'Severe acute respiratory syndrome-related coronavirus' TW1 stop_ save_ ######################### # Experimental source # ######################### save_experimental_source _Saveframe_category experimental_source loop_ _Mol_label _Production_method _Host_organism_name_common _Genus _Species _Strain _Vector_type _Vector_name $SARS 'cell free synthesis' . Escherichia coli . na na stop_ save_ ##################################### # Sample contents and methodology # ##################################### ######################## # Sample description # ######################## save_sample_1 _Saveframe_category sample _Sample_type solution _Details 'A complete mini protease inhibitor mix (Roche) was added' loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $SARS 0.5 mM [U-15N] 'sodium phosphate' 10 mM 'natural abundance' 'sodium chloride' 50 mM 'natural abundance' EDTA 1 mM 'natural abundance' DSS 1 mM 'natural abundance' 'sodium azide' 0.01 % 'natural abundance' $dT10 titrated mM 'natural abundance' H2O 90 % 'natural abundance' D2O 10 % 'natural abundance' stop_ save_ ############################ # Computer software used # ############################ save_xwinnmr _Saveframe_category software _Name xwinnmr _Version . loop_ _Vendor _Address _Electronic_address 'Bruker Biospin' . . stop_ loop_ _Task processing stop_ _Details . save_ save_iNMR _Saveframe_category software _Name iNMR _Version . loop_ _Vendor _Address _Electronic_address 'Nucleomatica, Italy' . . stop_ loop_ _Task processing stop_ _Details . save_ ######################### # Experimental detail # ######################### ################################## # NMR Spectrometer definitions # ################################## save_spectrometer_1 _Saveframe_category NMR_spectrometer _Manufacturer Bruker _Model Avance _Field_strength 600 _Details . save_ save_spectrometer_2 _Saveframe_category NMR_spectrometer _Manufacturer Bruker _Model Avance _Field_strength 800 _Details . save_ ############################# # NMR applied experiments # ############################# save_2D_1H-15N_HSQC_1 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-15N HSQC' _Sample_label $sample_1 save_ ####################### # Sample conditions # ####################### save_sample_conditions_1 _Saveframe_category sample_conditions _Details . loop_ _Variable_type _Variable_value _Variable_value_error _Variable_value_units pH 6.0 . pH pressure ambient . atm temperature 303 . K stop_ save_